Rs6679677

rs6679677 has been reported in a large study to be associated with rheumatoid arthritis.

The risk allele (oriented to the dbSNP entry) is (A); the odds ratio associated with heterozygotes is 1.98 (CI 1.72-2.27), and for homozygotes, 3.32 (CI 1.93-5.69). [PMID 17554300]

rs6679677 was also reported in the same study to be associated with type-1 diabetes. The risk allele (oriented to the dbSNP entry) is (A); the odds ratio associated with heterozygotes is 1.82 (CI 1.59-2.09), and for homozygotes, 5.19 (CI 3.15-8.55). [PMID 17554300]

Recently (Feb 2008), it has been asserted that the association between rs6679677 and type-1 diabetes is actually completely due to a closely linked, potentially causal variant identified as rs2476601, which is also known as Arg620Trp. In this study, apparently the largest to date, the odds ratio for the risk allele (of rs6679677) was reported to be 1.88 (CI: 1.66-2.13).[PMID 18305142]

DeCode reports that the CC genotype is associated with 1.05x higher odds of Crohn's disease. [PMID 18587394]

GWAS snp
PMID	[PMID 18978792]
Trait	Type 1 diabetes
Title	Meta-analysis of genome-wide association study data identifies additional type 1 diabetes risk loci
Risk Allele	A
P-val	1E-40
Odds Ratio	NR NR

GWAS snp
PMID	[PMID 18794853]
Trait	Rheumatoid arthritis
Title	Common variants at CD40 and other loci confer risk of rheumatoid arthritis
Risk Allele
P-val	6.0000000000000005E-42
Odds Ratio	1.79 [1.65-1.94]

GWAS snp
PMID	[PMID 17554260]
Trait	Type 1 diabetes
Title	Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes
Risk Allele	A
P-val	7.9999999999999994E-24
Odds Ratio	1.89 [1.67-2.13]

[PMID 19565500] Variants in TNFAIP3, STAT4, and C12orf30 loci associated with multiple autoimmune diseases are also associated with juvenile idiopathic arthritis

[PMID 22493691] Novel associations for hypothyroidism include known autoimmune risk Loci.